Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013651.1 Kokia drynarioides strain JFW-HI SEQ_128679, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 82920
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Warning! 12 characters in sequence are not A, C, G, or T
Found at i:2394 original size:43 final size:43
Alignment explanation
Indices: 2259--2397 Score: 170
Period size: 43 Copynumber: 3.2 Consensus size: 43
2249 AAATTCGAGT
* * * *
2259 TTTAGTGGCGTTTGTGGGAAAAACGCCGTTAAAAACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
* ** * * **
2302 TTTTGTAGCGTTTGTAGGATAAGCATCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
*
2345 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCCTGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
2388 TTTAGCGGCG
1 TTTAGCGGCG
2398 CTTATCCACA
Statistics
Matches: 79, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
Found at i:4420 original size:18 final size:20
Alignment explanation
Indices: 4382--4420 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4372 ATAAATTGTA
4382 TTATTTTATTATGTATAAAT
1 TTATTTTATTATGTATAAAT
4402 TTATTTT-TTATGT-TAAAT
1 TTATTTTATTATGTATAAAT
4420 T
1 T
4421 AAAGAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
19 6 0.32
20 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TTATTTTATTATGTATAAAT
Found at i:6449 original size:27 final size:25
Alignment explanation
Indices: 6398--6470 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 25
6388 TAAACATAAA
6398 TTTGAGAAAAAAAAAGTTTTTGGGG
1 TTTGAGAAAAAAAAAGTTTTTGGGG
* *
6423 TTTGAGAAGAAGAAAATTTTTTAGGGG
1 TTTGAGAA-AAAAAAAGTTTTT-GGGG
6450 TTTGAGAGAAATAAAAA-TTTT
1 TTTGAGA-AAA-AAAAAGTTTT
6471 GGGAAAAGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 8 0.20
26 11 0.27
27 17 0.41
28 5 0.12
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (25 bp):
TTTGAGAAAAAAAAAGTTTTTGGGG
Found at i:8022 original size:17 final size:17
Alignment explanation
Indices: 8000--8074 Score: 89
Period size: 17 Copynumber: 4.3 Consensus size: 17
7990 CAAACTCATC
8000 TTAAATTTATTTTAAGA-
1 TTAAATTTATTTTAA-AT
* *
8017 TTAAATTTGTTTAAAAAT
1 TTAAATTTATTT-TAAAT
8035 TTAAATTTATTTTAAAT
1 TTAAATTTATTTTAAAT
*
8052 TTAAATTTATCTTCAAAT
1 TTAAATTTAT-TTTAAAT
8070 TTAAA
1 TTAAA
8075 ATAAATAAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
17 26 0.52
18 24 0.48
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.52
Consensus pattern (17 bp):
TTAAATTTATTTTAAAT
Found at i:8070 original size:35 final size:35
Alignment explanation
Indices: 8000--8074 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 35
7990 CAAACTCATC
*
8000 TTAAATTTATTTTAAGATTAAATTTGTTTAAAAAT
1 TTAAATTTATTTTAAGATTAAATTTATTTAAAAAT
*
8035 TTAAATTTATTTTAA-ATTTAAATTTATCTT-CAAAT
1 TTAAATTTATTTTAAGA-TTAAATTTAT-TTAAAAAT
8070 TTAAA
1 TTAAA
8075 ATAAATAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
34 1 0.03
35 33 0.92
36 2 0.06
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.52
Consensus pattern (35 bp):
TTAAATTTATTTTAAGATTAAATTTATTTAAAAAT
Found at i:19707 original size:115 final size:115
Alignment explanation
Indices: 19499--19715 Score: 328
Period size: 115 Copynumber: 1.9 Consensus size: 115
19489 GAGGCTCAAA
* * *
19499 GCGAGCAAATCTTCTAACCCAAGCTTCCTGATGAGATACTGAGAAGCGGGTCGAAATAATAAAAT
1 GCGAGCAAATCTTCAAACCCAAGCTTCCTGATGAGATACTGAGAAGCGGGTCGAAACAATAAAAC
* * *
19564 GGTTAGCTTCCTGATGAGATACAGAGAAGTGTACCAACTCAAGACTCGAT
66 AGTTAGCTTCCTAATGAGATACAGAGAAGTGAACCAACTCAAGACTCGAT
* * *
19614 GCGAGCAAATCTTCAAACCCCAGCTTCCTGATGAGATACTGAGAAGCGGGTTGAAGCAATAAAAC
1 GCGAGCAAATCTTCAAACCCAAGCTTCCTGATGAGATACTGAGAAGCGGGTCGAAACAATAAAAC
*
19679 AGTTAGCTTCCTAATGAGATATTA-AGAAGTGAACCAA
66 AGTTAGCTTCCTAATGAGATA-CAGAGAAGTGAACCAA
19716 ATTCGTCTTC
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
115 90 0.99
116 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (115 bp):
GCGAGCAAATCTTCAAACCCAAGCTTCCTGATGAGATACTGAGAAGCGGGTCGAAACAATAAAAC
AGTTAGCTTCCTAATGAGATACAGAGAAGTGAACCAACTCAAGACTCGAT
Found at i:19976 original size:186 final size:186
Alignment explanation
Indices: 19662--20001 Score: 491
Period size: 186 Copynumber: 1.8 Consensus size: 186
19652 CTGAGAAGCG
* *
19662 GGTTGAAGCAATAAAACAGTTAGCTTCCTAATGAGATATTAAGAAGTGAACCAAATTCGTCTTCT
1 GGTTGAAGCAATAAAACAGTTAGCTTCCTAATGAGATACTAAGAAGTGAACCAAATTCGTCTTCC
* * ** * *
19727 TAAGGAGATACAAAGAAGCGGATTGAAACAAGCGATGCGGTCATATTCCTGATAAGATACTGAGA
66 TAAGGAGATACAAAGAAACGAATTGAAACAAAAGACGCAGTCATATTCCTGATAAGATACTGAGA
* *
19792 AGAATACCAAATCAAATCCATGCTCGATGTGAGCAAATCTTCGAATCCCAGTAGCA
131 AGAAGACCAAATCAAACCCATGCTCGATGTGAGCAAATCTTCGAATCCCAGTAGCA
* ** * *
19848 GGTTGAAGTAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCC
1 GGTTGAAGCAATAAAACAGTTAGCTTCCTAATGAGATACTAAGAAGTGAACCAAATTCGTCTTCC
* * * * * *
19913 TGATGAGATACAGAGAAACGAATTGAAACAAAAGGCGCAGTCATCTTCCTGATGAGATACTGAGA
66 TAAGGAGATACAAAGAAACGAATTGAAACAAAAGACGCAGTCATATTCCTGATAAGATACTGAGA
19978 AGAAGACCAAATCAAACCCATGCT
131 AGAAGACCAAATCAAACCCATGCT
20002 TAATACGAGC
Statistics
Matches: 133, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
186 133 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (186 bp):
GGTTGAAGCAATAAAACAGTTAGCTTCCTAATGAGATACTAAGAAGTGAACCAAATTCGTCTTCC
TAAGGAGATACAAAGAAACGAATTGAAACAAAAGACGCAGTCATATTCCTGATAAGATACTGAGA
AGAAGACCAAATCAAACCCATGCTCGATGTGAGCAAATCTTCGAATCCCAGTAGCA
Found at i:20563 original size:35 final size:34
Alignment explanation
Indices: 20524--20632 Score: 125
Period size: 35 Copynumber: 3.1 Consensus size: 34
20514 CAAACTCATC
*
20524 TTAAATTTATTTTAAGA-TTAAATTT-GTTTAAAAAT
1 TTAAATTTATTTTAA-ATTTAAATTTAATTT--AAAT
*
20559 TTAAATTTATTTTAAATTTAAATTTAATTTAAGT
1 TTAAATTTATTTTAAATTTAAATTTAATTTAAAT
*
20593 TTAAATTTATTTTCAAATTTAAAATT-ATTATAAAT
1 TTAAATTTATTTT-AAATTTAAATTTAATT-TAAAT
20628 TTAAA
1 TTAAA
20633 ATAAATAAAG
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
34 20 0.30
35 43 0.65
36 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (34 bp):
TTAAATTTATTTTAAATTTAAATTTAATTTAAAT
Found at i:20566 original size:6 final size:6
Alignment explanation
Indices: 20555--20632 Score: 67
Period size: 6 Copynumber: 13.5 Consensus size: 6
20545 ATTTGTTTAA
* *
20555 AAATTT AAATTT -ATTTT AAATTT AAATTT -AATTT AAGTTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* *
20601 -ATTTT CAAATTT AAAATT --ATTAT AAATTT AAA
1 AAATTT -AAATTT AAATTT AAATT-T AAATTT AAA
20633 ATAAATAAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
4 2 0.04
5 14 0.25
6 34 0.60
7 7 0.12
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (6 bp):
AAATTT
Found at i:20574 original size:11 final size:11
Alignment explanation
Indices: 20558--20613 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
20548 TGTTTAAAAA
20558 TTTAAATTTAT
1 TTTAAATTTAT
*
20569 TTTAAATTTAAA
1 TTTAAATTT-AT
*
20581 TTT-AATTTAAG
1 TTTAAATTT-AT
20592 TTTAAATTTAT
1 TTTAAATTTAT
20603 TTTCAAATTTA
1 TTT-AAATTTA
20614 AAATTATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
11 23 0.59
12 16 0.41
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:20590 original size:52 final size:52
Alignment explanation
Indices: 20524--20632 Score: 155
Period size: 52 Copynumber: 2.1 Consensus size: 52
20514 CAAACTCATC
* * * *
20524 TTAAATTTATTTTAAGATTAAATTTGTTTAAAAATTTAAATTTATTTTAAAT
1 TTAAATTTAATTTAAGATTAAATTTATTTAAAAATTTAAAATTATTATAAAT
* **
20576 TTAAATTTAATTTAAGTTTAAATTTATTTTCAAATTTAAAATTATTATAAAT
1 TTAAATTTAATTTAAGATTAAATTTATTTAAAAATTTAAAATTATTATAAAT
20628 TTAAA
1 TTAAA
20633 ATAAATAAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (52 bp):
TTAAATTTAATTTAAGATTAAATTTATTTAAAAATTTAAAATTATTATAAAT
Found at i:20634 original size:17 final size:17
Alignment explanation
Indices: 20524--20632 Score: 130
Period size: 17 Copynumber: 6.3 Consensus size: 17
20514 CAAACTCATC
20524 TTAAATTTATTTTAAGA-
1 TTAAATTTATTTTAA-AT
* *
20541 TTAAATTTGTTTAAAAAT
1 TTAAATTTATTT-TAAAT
20559 TTAAATTTATTTTAAAT
1 TTAAATTTATTTTAAAT
* *
20576 TTAAATTTAATTTAAGT
1 TTAAATTTATTTTAAAT
20593 TTAAATTTATTTTCAAAT
1 TTAAATTTATTTT-AAAT
* *
20611 TTAAAATTATTATAAAT
1 TTAAATTTATTTTAAAT
20628 TTAAA
1 TTAAA
20633 ATAAATAAAG
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
17 52 0.66
18 27 0.34
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (17 bp):
TTAAATTTATTTTAAAT
Found at i:22416 original size:29 final size:28
Alignment explanation
Indices: 22350--22461 Score: 77
Period size: 29 Copynumber: 3.9 Consensus size: 28
22340 GTCCCTAAAC
* * *
22350 CTTCCAAAAATTCCATTTTTACCCTTGAA
1 CTTCAAAAAATCCCATTTTTACCC-CGAA
22379 CTT-AAAAAATCCCATTTTTGACCCCGAA
1 CTTCAAAAAATCCCATTTTT-ACCCCGAA
* * * *
22407 GCTTCCAAAAATTCTA-TTTTACCCCCAAA
1 -CTTCAAAAAATCCCATTTTTA-CCCCGAA
*
22436 CTTTC-AAAAATCCCAATTTTGACCCC
1 C-TTCAAAAAATCCC-ATTTTTACCCC
22462 AAAAGTTCCA
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
28 26 0.39
29 28 0.42
30 12 0.18
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.32
Consensus pattern (28 bp):
CTTCAAAAAATCCCATTTTTACCCCGAA
Found at i:22445 original size:58 final size:58
Alignment explanation
Indices: 22350--22630 Score: 278
Period size: 58 Copynumber: 5.0 Consensus size: 58
22340 GTCCCTAAAC
* *** * *
22350 CTTCCAAAAATTCCATTTTTACCCTTGAAC-TTAAAAAATCCCATTTTTGACCCCGAAG
1 CTTCCAAAAATTCTA-TTTTACCCCCAAACTTTCAAAAATCCCATTTTTGACCCCAAAG
*
22408 CTTCCAAAAATTCTATTTTACCCCCAAACTTTCAAAAATCCCAATTTTGACCCCAAAAG
1 CTTCCAAAAATTCTATTTTACCCCCAAACTTTCAAAAATCCCATTTTTGACCCC-AAAG
* * * * *
22467 -TTCC----A---T-TTTTATCCCTAAA-TTTCCAAAATCCCATTTTTGACCCTAAAA
1 CTTCCAAAAATTCTATTTTACCCCCAAACTTTCAAAAATCCCATTTTTGACCCCAAAG
* * * * * **
22515 CTTTCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCTGAAG
1 CTTCCAAAAATTCTA-TTTTACCCCCAAACTTTCAAAAATCCCATTTTTGACCCCAAAG
*
22574 CTTCCAAAAATTCTATTTTACCCCCAAACTTTCAAAAATCCCAATTTTGACCCCAAA
1 CTTCCAAAAATTCTATTTTACCCCCAAACTTTCAAAAATCCCATTTTTGACCCCAAA
22631 AGTTCCATTT
Statistics
Matches: 179, Mismatches: 31, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
48 3 0.02
49 25 0.14
50 11 0.06
51 1 0.01
53 1 0.01
54 1 0.01
57 11 0.06
58 85 0.47
59 41 0.23
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (58 bp):
CTTCCAAAAATTCTATTTTACCCCCAAACTTTCAAAAATCCCATTTTTGACCCCAAAG
Found at i:22462 original size:29 final size:29
Alignment explanation
Indices: 22383--22464 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
22373 CTTGAACTTA
* *
22383 AAAAATCCCATTTTTGACCCCGAAGCTTCC
1 AAAAATCCCAATTTTGACCCC-AAACTTCC
* * *
22413 AAAAAT-TCTATTTT-ACCCCCAAACTTTC
1 AAAAATCCCAATTTTGA-CCCCAAACTTCC
22441 AAAAATCCCAATTTTGACCCCAAA
1 AAAAATCCCAATTTTGACCCCAAA
22465 AGTTCCATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
28 13 0.31
29 22 0.52
30 7 0.17
ACGTcount: A:0.37, C:0.30, G:0.05, T:0.28
Consensus pattern (29 bp):
AAAAATCCCAATTTTGACCCCAAACTTCC
Found at i:22492 original size:29 final size:29
Alignment explanation
Indices: 22460--22637 Score: 123
Period size: 29 Copynumber: 6.1 Consensus size: 29
22450 AATTTTGACC
* *
22460 CCAAAAGTTCCATTTTTATCCCT-AAATTT
1 CCAAAAATCCCATTTTTA-CCCTAAAATTT
22489 CC-AAAATCCCATTTTTGACCCTAAAACTTT
1 CCAAAAATCCCATTTTT-ACCCTAAAA-TTT
* ** *
22519 -CAAAAATTCCATTTTTACCCTCGAACTT
1 CCAAAAATCCCATTTTTACCCTAAAATTT
* **
22547 CCAAAAATCCCATTTTTGACCCTGAAGCTT
1 CCAAAAATCCCATTTTT-ACCCTAAAATTT
* * * *
22577 CCAAAAATTCTA-TTTTACCCCCAAACTTT
1 CCAAAAATCCCATTTTTA-CCCTAAAATTT
* * *
22606 -CAAAAATCCCAATTTTGACCCCAAAAGTT
1 CCAAAAATCCC-ATTTTTACCCTAAAATTT
22635 CCA
1 CCA
22638 TTTTTATCCC
Statistics
Matches: 118, Mismatches: 21, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
28 27 0.23
29 50 0.42
30 41 0.35
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (29 bp):
CCAAAAATCCCATTTTTACCCTAAAATTT
Found at i:22509 original size:107 final size:108
Alignment explanation
Indices: 22353--22568 Score: 283
Period size: 107 Copynumber: 2.0 Consensus size: 108
22343 CCTAAACCTT
* * *
22353 CCAAAAATTCCATTTTTACCCTTGAACTTAAAAAATCCCATTTTTGACCCCGAAGCTTCCAAAAA
1 CCAAAAATTCCATTTTTACCCTTAAACTTAAAAAATCCCATTTTTGACCCCAAAACTTCCAAAAA
* *
22418 TTCTA-TTTTACCCCCAAACTTTCAAAAATCCCAATTTTGACC
66 TTCCATTTTTACCCCCAAACTTCCAAAAATCCCAATTTTGACC
* * ** * *
22460 CCAAAAGTTCCATTTTTATCCC-TAAATTTCCAAAATCCCATTTTTGACCCTAAAACTTTCAAAA
1 CCAAAAATTCCATTTTTA-CCCTTAAACTTAAAAAATCCCATTTTTGACCCCAAAACTTCCAAAA
* * *
22524 ATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACC
65 ATTCCATTTTTACCCCCAAACTTCCAAAAATCCCAATTTTGACC
22568 C
1 C
22569 TGAAGCTTCC
Statistics
Matches: 93, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
107 56 0.60
108 37 0.40
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.33
Consensus pattern (108 bp):
CCAAAAATTCCATTTTTACCCTTAAACTTAAAAAATCCCATTTTTGACCCCAAAACTTCCAAAAA
TTCCATTTTTACCCCCAAACTTCCAAAAATCCCAATTTTGACC
Found at i:22582 original size:59 final size:57
Alignment explanation
Indices: 22460--22731 Score: 224
Period size: 59 Copynumber: 4.8 Consensus size: 57
22450 AATTTTGACC
* * *
22460 CCAAAAGTTCCATTTTTATCCCT-AAATTTCCAAAATCCCATTTTTGACCCTAAAACTT
1 CCAAAAATTCCATTTTTA-CCCTCAAACTTCCAAAATCCCATTTTTGA-CCTGAAACTT
* * *
22518 TCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCTGAAGCTT
1 CCAAAAATTCCATTTTTACCCTCAAACTTCC-AAAATCCCATTTTTGA-CCTGAAACTT
* * * *
22577 CCAAAAATTCTA-TTTTACCCCCAAACTTTCAAAAATCCCAATTTTGA-C-----C--
1 CCAAAAATTCCATTTTTACCCTCAAAC-TTCCAAAATCCCATTTTTGACCTGAAACTT
* * * *
22626 CCAAAAGTTCCATTTTTATCCCT-AAATTTCCCAAATTCCTATTTTTGACCTCGAAACTT
1 CCAAAAATTCCATTTTTA-CCCTCAAACTT-CCAAAATCCCATTTTTGACCT-GAAACTT
* * *
22685 CCAAAAATTCCTTTTTTTGCCCTCGAACTTCCAAAATCTCCATTTTT
1 CCAAAAATTCC-ATTTTTACCCTCAAACTTCCAAAATC-CCATTTTT
22732 TACTTCAAAA
Statistics
Matches: 169, Mismatches: 27, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
49 12 0.07
50 22 0.13
51 5 0.03
56 1 0.01
57 5 0.03
58 49 0.29
59 59 0.35
60 16 0.09
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.36
Consensus pattern (57 bp):
CCAAAAATTCCATTTTTACCCTCAAACTTCCAAAATCCCATTTTTGACCTGAAACTT
Found at i:22615 original size:166 final size:167
Alignment explanation
Indices: 22342--22731 Score: 635
Period size: 166 Copynumber: 2.3 Consensus size: 167
22332 CCTTGAAGGT
* * *
22342 CCCTAAACCTTCCAAAAATTCCATTTTTACCCTTGAACTT-AAAAAATCCCATTTTTGACCCCGA
1 CCCTAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCGA
22406 AGCTTCCAAAAATTCTATTTTACCCCCAAACTTTCAAAAATCCCAATTTTGACCCCAAAAGTTCC
66 AGCTTCCAAAAATTCTATTTTACCCCCAAACTTTCAAAAATCCCAATTTTGACCCCAAAAGTTCC
22471 ATTTTTATCCCTAAATTT-CCAAAATCCCATTTTTGA
131 ATTTTTATCCCTAAATTTCCCAAAATCCCATTTTTGA
* *
22507 CCCTAAAACTTTCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCTGA
1 CCCTAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCGA
22572 AGCTTCCAAAAATTCTATTTTACCCCCAAACTTTCAAAAATCCCAATTTTGACCCCAAAAGTTCC
66 AGCTTCCAAAAATTCTATTTTACCCCCAAACTTTCAAAAATCCCAATTTTGACCCCAAAAGTTCC
* *
22637 ATTTTTATCCCTAAATTTCCCAAATTCCTATTTTTGA
131 ATTTTTATCCCTAAATTTCCCAAAATCCCATTTTTGA
* * *
22674 -CCTCGAAACTTCCAAAAATTCCTTTTTTTGCCCTCGAACTTCC-AAAATCTCCATTTTT
1 CCCT-AAAACTTCCAAAAATTCC-ATTTTTACCCTCGAACTTCCAAAAATC-CCATTTTT
22732 TACTTCAAAA
Statistics
Matches: 209, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
165 37 0.18
166 108 0.52
167 38 0.18
168 26 0.12
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (167 bp):
CCCTAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCGA
AGCTTCCAAAAATTCTATTTTACCCCCAAACTTTCAAAAATCCCAATTTTGACCCCAAAAGTTCC
ATTTTTATCCCTAAATTTCCCAAAATCCCATTTTTGA
Found at i:22714 original size:30 final size:31
Alignment explanation
Indices: 22658--22753 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 31
22648 TAAATTTCCC
22658 AAATTCCTATTTTTGACCTCGAAACTTCCAA
1 AAATTCCTATTTTTGACCTCGAAACTTCCAA
* *
22689 AAATTCCTTTTTTTGCCCTCG-AACTTCC-A
1 AAATTCCTATTTTTGACCTCGAAACTTCCAA
* * *
22718 AAATCTCC-ATTTTTTACTTCAAAAC-TCTCAA
1 AAAT-TCCTATTTTTGACCTCGAAACTTC-CAA
22749 AAATT
1 AAATT
22754 ACCCTCTTAC
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
29 15 0.28
30 15 0.28
31 24 0.44
ACGTcount: A:0.31, C:0.26, G:0.04, T:0.39
Consensus pattern (31 bp):
AAATTCCTATTTTTGACCTCGAAACTTCCAA
Found at i:24114 original size:9 final size:9
Alignment explanation
Indices: 24100--24124 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24090 CCCGAATATA
24100 AAAATAATG
1 AAAATAATG
24109 AAAATAATG
1 AAAATAATG
24118 AAAATAA
1 AAAATAA
24125 AAAAATCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (9 bp):
AAAATAATG
Found at i:27128 original size:67 final size:67
Alignment explanation
Indices: 27020--27168 Score: 289
Period size: 67 Copynumber: 2.2 Consensus size: 67
27010 TCTCCAATAC
27020 AATCACAATTTTAACCCTCAGCTTCCTTAGAGGATTAAGCATGCACAAAATAAATAATGTGTCCA
1 AATCACAATTTTAACCCTCAGCTTCCTTAGAGGATTAAGCATGCACAAAATAAATAATGTGTCCA
27085 TT
66 TT
27087 AATCACAATTTTAACCCTCAGCTTCCTTAGAGGATTAAGCATGCACAAAATAAATAATGTGTCCA
1 AATCACAATTTTAACCCTCAGCTTCCTTAGAGGATTAAGCATGCACAAAATAAATAATGTGTCCA
27152 TT
66 TT
*
27154 AAGCACAATTTTAAC
1 AATCACAATTTTAAC
27169 GTGCTTAAAT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 81 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (67 bp):
AATCACAATTTTAACCCTCAGCTTCCTTAGAGGATTAAGCATGCACAAAATAAATAATGTGTCCA
TT
Found at i:27369 original size:12 final size:12
Alignment explanation
Indices: 27354--27379 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27344 AATTAAAGAA
27354 ATAATAGCATTC
1 ATAATAGCATTC
27366 ATAATAGCATTC
1 ATAATAGCATTC
27378 AT
1 AT
27380 CATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATAATAGCATTC
Found at i:31118 original size:23 final size:22
Alignment explanation
Indices: 31025--31126 Score: 123
Period size: 23 Copynumber: 4.5 Consensus size: 22
31015 AATGTTGGGC
* *
31025 AACAGTGAGCACACACAGTGCA
1 AACAGTAAGCACACACAGTGCG
31047 AATCAGTAAGCACACACAGTGCG
1 AA-CAGTAAGCACACACAGTGCG
* *
31070 AATAAGTAAGCACACACAGTGATG
1 AA-CAGTAAGCACACACAGTG-CG
*
31094 AACAGTAAGCACACACAATGCTG
1 AACAGTAAGCACACACAGTGC-G
31117 AACAGTAAGC
1 AACAGTAAGC
31127 GCGTTAGTGT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
22 2 0.03
23 65 0.93
24 3 0.04
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (22 bp):
AACAGTAAGCACACACAGTGCG
Found at i:42355 original size:39 final size:39
Alignment explanation
Indices: 42301--42387 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
42291 TCCCATGTGA
42301 GGTTGAGATACAGTCAGATTTGTCATATTCAGAAGAACT
1 GGTTGAGATACAGTCAGATTTGTCATATTCAGAAGAACT
** *
42340 GGTTGAGATACAGTCAGATTTGTTGTATTCAGAAGAATT
1 GGTTGAGATACAGTCAGATTTGTCATATTCAGAAGAACT
*
42379 GGTTAAGAT
1 GGTTGAGAT
42388 TCTGGCTCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.33
Consensus pattern (39 bp):
GGTTGAGATACAGTCAGATTTGTCATATTCAGAAGAACT
Found at i:49413 original size:39 final size:39
Alignment explanation
Indices: 49359--49445 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
49349 TCCCATGTGA
49359 GGTTGAGATACAGTCAGATTTGTCATATTCAGAAGAACT
1 GGTTGAGATACAGTCAGATTTGTCATATTCAGAAGAACT
** *
49398 GGTTGAGATACAGTCAGATTTGTTGTATTCAGAAGAATT
1 GGTTGAGATACAGTCAGATTTGTCATATTCAGAAGAACT
*
49437 GGTTAAGAT
1 GGTTGAGAT
49446 TCTGGCTCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.33
Consensus pattern (39 bp):
GGTTGAGATACAGTCAGATTTGTCATATTCAGAAGAACT
Found at i:51723 original size:21 final size:20
Alignment explanation
Indices: 51697--51748 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
51687 GAGTTTTTGA
51697 TATCGGTAG-TTGCATGACTCG
1 TATCGGTAGATT-CAT-ACTCG
*
51718 TATCGGTAGAATTCATACTTG
1 TATCGGTAG-ATTCATACTCG
51739 TATCGGTAGA
1 TATCGGTAGA
51749 GCTAGAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.04
21 22 0.79
22 3 0.11
23 2 0.07
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (20 bp):
TATCGGTAGATTCATACTCG
Found at i:68538 original size:209 final size:209
Alignment explanation
Indices: 68165--68551 Score: 548
Period size: 209 Copynumber: 1.9 Consensus size: 209
68155 ACAAAGATCC
* * *
68165 ATGAGATATAAAGAAGCAGACCAAAATAATGAAGAGAAGCTCAATACGAGTGAAACTTCAAAACT
1 ATGAGATACAAAGAAGCAGACCAAAATAATGAAGAGAAACTCAATACGAGTGAAACTTCAAAACC
* *
68230 TCAACTTCTTGATGAGATACAGAGAAGTCAGTCGAAGCAACAAAGTGGTCATCTTCCTGATGAGA
66 CCAACTTCTTGATGAGATACAGAGAAGTCAGTCGAAGCAACAAAGTGGTCATCTTCCTGACGAGA
*
68295 TGCAGAGAAGTGAACCAAATCAGTATTTCTGATGAGATACAGAGAAGTGGATTAAAACAATGAAG
131 TGCAAAGAAGTGAACCAAATCAGTATTTCTGATGAGATACAGAGAAGTGGATTAAAACAATGAAG
68360 CGGTCATCTTTCTG
196 CGGTCATCTTTCTG
* * ** ** *
68374 ATGAGATACAGAGAAGTAGACCAATTTAATGAA-ATGAAACTCAATGTGAGTGAAACTTCCAAAC
1 ATGAGATACAAAGAAGCAGACCAAAATAATGAAGA-GAAACTCAATACGAGTGAAACTTCAAAAC
* ** * *
68438 CCCATCTTCCTT-ATGAGATACAGAGAAGTTGGTCGAAGCAATAAAGTGGTCATCTTCTTGACGA
65 CCCAACTT-CTTGATGAGATACAGAGAAGTCAGTCGAAGCAACAAAGTGGTCATCTTCCTGACGA
68502 GATGCAAAGAAGTGAACCAAATCCA-T-TTTCCTGATGAGATACAGAGAAGT
129 GATGCAAAGAAGTGAACCAAAT-CAGTATTT-CTGATGAGATACAGAGAAGT
68552 AGACCAATTC
Statistics
Matches: 156, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
208 4 0.03
209 147 0.94
210 5 0.03
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (209 bp):
ATGAGATACAAAGAAGCAGACCAAAATAATGAAGAGAAACTCAATACGAGTGAAACTTCAAAACC
CCAACTTCTTGATGAGATACAGAGAAGTCAGTCGAAGCAACAAAGTGGTCATCTTCCTGACGAGA
TGCAAAGAAGTGAACCAAATCAGTATTTCTGATGAGATACAGAGAAGTGGATTAAAACAATGAAG
CGGTCATCTTTCTG
Found at i:68549 original size:161 final size:161
Alignment explanation
Indices: 68364--68712 Score: 509
Period size: 161 Copynumber: 2.2 Consensus size: 161
68354 ATGAAGCGGT
* * *
68364 CATCTTTCTGATGAGATACAGAGAAGTAGACCAATTTAATGAAATGAAACTCAATGTGAGTGAAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGACCAATTCAATGAAACGAAACTCAATGTGAGTGAAA
* * * *
68429 CTTCCAAACCCCATCTTCCTTATGAGATACAGAGAAGTTGGTCGAAGCAATAAAGTGGTCATCTT
66 CTTCCAAACCCCATCTTCCTGATAAGATACAAAGAAGTGGGTCGAAGCAATAAAGTGGTCATCTT
* *
68494 CTTGACGAGATGCAAAGAAGTGAACCAAATC
131 CCTGACGAGATGCAAAGAAGTAAACCAAATC
* * *
68525 CATTTTCCTGATGAGATACAGAGAAGTAGACCAATTCAATGAAGCGAAGCTCAATGTGAGTGAAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGACCAATTCAATGAAACGAAACTCAATGTGAGTGAAA
* * *
68590 CTTCCAAACCCTATCTTCCTGATAAGATACAAAGAAGTGGGTCGAAGTAATGAAGTGGTCATCTT
66 CTTCCAAACCCCATCTTCCTGATAAGATACAAAGAAGTGGGTCGAAGCAATAAAGTGGTCATCTT
* * *
68655 CCTGACGAGATGCAGAGAAGTAAATCGAATC
131 CCTGACGAGATGCAAAGAAGTAAACCAAATC
** *
68686 TGTCTTCCTGATGAGATATAGAGAAGT
1 CATCTTCCTGATGAGATACAGAGAAGT
68713 GGATTAAAAT
Statistics
Matches: 166, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
161 166 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (161 bp):
CATCTTCCTGATGAGATACAGAGAAGTAGACCAATTCAATGAAACGAAACTCAATGTGAGTGAAA
CTTCCAAACCCCATCTTCCTGATAAGATACAAAGAAGTGGGTCGAAGCAATAAAGTGGTCATCTT
CCTGACGAGATGCAAAGAAGTAAACCAAATC
Found at i:68655 original size:209 final size:204
Alignment explanation
Indices: 68534--69092 Score: 611
Period size: 209 Copynumber: 2.7 Consensus size: 204
68524 CCATTTTCCT
* *
68534 GATGAGATACAGAGAAGTAGACCAATTCAATGAAGCGAAGCTCAATGTGAGTGAAACTTCCAAAC
1 GATGAGATACAGACAAGTAGACCAATTCAATGAAACGAAGCTCAATGTGAGTGAAACTTCCAAAC
* * * * * * *
68599 CCTATCTTCCTGATAAGATACAAAGAAGTGGGTCGAAGTAATGAAGTGGTCATCTTCCTGACGAG
66 CCCATCTTCCTAATAAGATACAAAAAAATGGGTCGAAGCAATAAAGTGGTCATCTTCCTGATGAG
* * *
68664 ATGCAGAGAAGTAAATCGAATCTGTCTTCCTGATGAGATATAGAGAAGTGGATTAAAATAATTAA
131 ATGCAGAGAAGTAAATCGAATCTGTCTTCCTGACGAGATACAAAGAAGTGGA-TAAAATAATT-A
68729 GCGGTCATCTTCTA
194 -C-G-CATCTTCTA
* *
68743 GATGAGATACAGACAAGTAGACCAATTCAATGAAACGAAGCTTAATGTGAGTGAAATTTCCAAAC
1 GATGAGATACAGACAAGTAGACCAATTCAATGAAACGAAGCTCAATGTGAGTGAAACTTCCAAAC
*
68808 CCCATCTTCCTAATGAGATACAAAAAAATGGGTCGAAGCAATAAAGTGGTCATCTTCCTGATGAG
66 CCCATCTTCCTAATAAGATACAAAAAAATGGGTCGAAGCAATAAAGTGGTCATCTTCCTGATGAG
* * * * * * * *
68873 ATGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAA
131 ATGCAGAGAAGTAAATCGAATCTGTCTTCCTGACGAGATACAAAGAAGTGGA-TAAAATAAT-TA
68938 GCAGTCATCTTCCT-
194 -C-G-CATCTT-CTA
* * ** * * *
68952 GATGAGATACAG-GAAGTAGATCAATTCAATGAAACGAAGCTCAATACGAATGAGACTT-AAAAC
1 GATGAGATACAGACAAGTAGACCAATTCAATGAAACGAAGCTCAATGTGAGTGAAACTTCCAAAC
* * * * **** * *** *
69015 CCCATCATCCTGATGAGATACAGAGTGGTGGGTCGAAGTAATAAAGCAATCATCTTCTTGATGAG
66 CCCATCTTCCTAATAAGATACAAAAAAATGGGTCGAAGCAATAAAGTGGTCATCTTCCTGATGAG
69080 ATGCAGAGAAGTA
131 ATGCAGAGAAGTA
69093 GACCAAGAAA
Statistics
Matches: 306, Mismatches: 42, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
207 69 0.23
208 38 0.12
209 197 0.64
210 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (204 bp):
GATGAGATACAGACAAGTAGACCAATTCAATGAAACGAAGCTCAATGTGAGTGAAACTTCCAAAC
CCCATCTTCCTAATAAGATACAAAAAAATGGGTCGAAGCAATAAAGTGGTCATCTTCCTGATGAG
ATGCAGAGAAGTAAATCGAATCTGTCTTCCTGACGAGATACAAAGAAGTGGATAAAATAATTACG
CATCTTCTA
Found at i:68750 original size:85 final size:85
Alignment explanation
Indices: 68603--68761 Score: 194
Period size: 85 Copynumber: 1.9 Consensus size: 85
68593 CCAAACCCTA
* * * * *
68603 TCTTCCTGATAAGATACAAAGAAGTGGGTCGAAGTAATGAAGTGGTCATCTTCCTGACGAGATGC
1 TCTTCCTGATAAGATACAAAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTGACGAGATAC
*
68668 AGAGAAGTAAATCGAATCTG
66 AGACAAGTAAATCGAATCTG
* * * * * *
68688 TCTTCCTGATGAGATATAGAGAAGTGGATTAAAATAATTAAGCGGTCATCTT-CTAGATGAGATA
1 TCTTCCTGATAAGATACAAAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCT-GACGAGATA
68752 CAGACAAGTA
65 CAGACAAGTA
68762 GACCAATTCA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
84 2 0.03
85 59 0.97
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (85 bp):
TCTTCCTGATAAGATACAAAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTGACGAGATAC
AGACAAGTAAATCGAATCTG
Found at i:68937 original size:370 final size:370
Alignment explanation
Indices: 68165--68939 Score: 1077
Period size: 370 Copynumber: 2.1 Consensus size: 370
68155 ACAAAGATCC
* * * * * *
68165 ATGAGATATAAAGAAGCAGACCAAAATAATGAAGAGAAGCTCAATACGAGTGAAACTTCAAAACT
1 ATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAATACGAGTGAAACTTCAAAACC
* * * *
68230 TCAACTTCTTGATGAGATACAGAGAAGTCAGTCGAAGCAACAAAGTGGTCATCTTCCTGATGAGA
66 TCAACTTCCTGATAAGATACAAAGAAGTCAGTCGAAGCAACAAAGTGGTCATCTTCCTGACGAGA
* *
68295 TGCAGAGAAGTGAACCAAATCAGTATTTCTGATGAGATACAGAGAAGTGGATTAAAACAATGAAG
131 TGCAGAGAAGTAAACCAAATCAGTATTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAAG
* * *
68360 CGGTCATCTTTCTGATGAGATACAGAGAAGTAGACCAATTTAATGAAATGAAACTCAATGTGAGT
196 CGGTCATCTTTCTGATGAGATACAGACAAGTAGACCAATTCAATGAAACGAAACTCAATGTGAGT
* * * * *
68425 GAAACTTCCAAACCCCATCTTCCTTATGAGATACAGAGAAGTTGGTCGAAGCAATAAAGTGGTCA
261 GAAACTTCCAAACCCCATCTTCCTAATGAGATACAAAAAAATGGGTCGAAGCAATAAAGTGGTCA
* *
68490 TCTTCTTGACGAGATGCAAAGAAGTGAACCAAATCCATTTTCCTG
326 TCTTCCTGACGAGATGCAAAGAAGTGAACCAAATCCATCTTCCTG
** ** *
68535 ATGAGATACAGAGAAGTAGACCAATTCAATGAAGCGAAGCTCAATGTGAGTGAAACTTCCAAACC
1 ATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAATACGAGTGAAACTTCAAAACC
* ** * **
68600 -CTATCTTCCTGATAAGATACAAAGAAGTGGGTCGAAGTAATGAAGTGGTCATCTTCCTGACGAG
66 TC-AACTTCCTGATAAGATACAAAGAAGTCAGTCGAAGCAACAAAGTGGTCATCTTCCTGACGAG
* * * * * * *
68664 ATGCAGAGAAGTAAATCGAATCTGTCTTCCTGATGAGATATAGAGAAGTGGATTAAAATAATTAA
130 ATGCAGAGAAGTAAACCAAATCAGTATTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAA
* *
68729 GCGGTCATC-TTCTAGATGAGATACAGACAAGTAGACCAATTCAATGAAACGAAGCTTAATGTGA
195 GCGGTCATCTTTCT-GATGAGATACAGACAAGTAGACCAATTCAATGAAACGAAACTCAATGTGA
*
68793 GTGAAATTTCCAAACCCCATCTTCCTAATGAGATACAAAAAAATGGGTCGAAGCAATAAAGTGGT
259 GTGAAACTTCCAAACCCCATCTTCCTAATGAGATACAAAAAAATGGGTCGAAGCAATAAAGTGGT
* * *
68858 CATCTTCCTGATGAGATGCAGAGAAGTGAACCAAATCCGTCTTCCTG
324 CATCTTCCTGACGAGATGCAAAGAAGTGAACCAAATCCATCTTCCTG
* **
68905 ATGAGATACAGAGAAGTGGATTAAAACAATGAAGC
1 ATGAGATACAGAGAAGTAGACCAAAACAATGAAGC
68940 AGTCATCTTC
Statistics
Matches: 352, Mismatches: 51, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
369 5 0.01
370 347 0.99
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (370 bp):
ATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAATACGAGTGAAACTTCAAAACC
TCAACTTCCTGATAAGATACAAAGAAGTCAGTCGAAGCAACAAAGTGGTCATCTTCCTGACGAGA
TGCAGAGAAGTAAACCAAATCAGTATTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAAG
CGGTCATCTTTCTGATGAGATACAGACAAGTAGACCAATTCAATGAAACGAAACTCAATGTGAGT
GAAACTTCCAAACCCCATCTTCCTAATGAGATACAAAAAAATGGGTCGAAGCAATAAAGTGGTCA
TCTTCCTGACGAGATGCAAAGAAGTGAACCAAATCCATCTTCCTG
Found at i:70105 original size:11 final size:11
Alignment explanation
Indices: 70089--70121 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
70079 TTCAAACATT
70089 TAATAAATAAA
1 TAATAAATAAA
*
70100 TAATAAATATA
1 TAATAAATAAA
70111 TAATAAATAAA
1 TAATAAATAAA
70122 AAGGAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:71105 original size:30 final size:29
Alignment explanation
Indices: 71048--71220 Score: 172
Period size: 30 Copynumber: 5.8 Consensus size: 29
71038 GTTTTATTTA
*
71048 AAAATTACATTTTTAACCTCCCAAACTTCTCT
1 AAAATTACA-TTTTAACC-CTCAAACTT-TCT
*
71080 AAAATTGCATTTTAACCCTCAAACTTT-T
1 AAAATTACATTTTAACCCTCAAACTTTCT
* *
71108 AAAAATTACATTTTTATCCCT-AAACTTTCCC
1 -AAAATTACA-TTTTAACCCTCAAACTTT-CT
* *
71139 AAAATTGCATTTTAACCCTCAAACTTTCCC
1 AAAATTACATTTTAACCCTCAAACTTT-CT
* *
71169 AAAATCACATTTTAACCCTTAAACTTTCT
1 AAAATTACATTTTAACCCTCAAACTTTCT
*
71198 CAAAATTACATTTT-ATCCTCAAA
1 -AAAATTACATTTTAACCCTCAAA
71221 TGCTTCGAAA
Statistics
Matches: 121, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
28 1 0.01
29 33 0.27
30 71 0.59
31 8 0.07
32 8 0.07
ACGTcount: A:0.36, C:0.25, G:0.01, T:0.37
Consensus pattern (29 bp):
AAAATTACATTTTAACCCTCAAACTTTCT
Found at i:71202 original size:60 final size:59
Alignment explanation
Indices: 71047--71220 Score: 201
Period size: 59 Copynumber: 2.9 Consensus size: 59
71037 TGTTTTATTT
* * *
71047 AAAAATTACATTTTTAACCTCCCAAAC-TTCTCTAAAATTGCATTTTAACCCTCAAACTTTT
1 AAAAATCACATTTTTAA-C-CCTAAACTTTCTC-AAAATTGCATTTTAACCCTCAAACTTTC
* * *
71108 AAAAATTACATTTTTATCCCTAAACTTTCCCAAAATTGCATTTTAACCCTCAAACTTTCC
1 AAAAATCACATTTTTAACCCTAAACTTTCTCAAAATTGCATTTTAACCCTCAAACTTT-C
* * *
71168 CAAAATCACA-TTTTAACCCTTAAACTTTCTCAAAATTACATTTT-ATCCTCAAA
1 AAAAATCACATTTTTAACCC-TAAACTTTCTCAAAATTGCATTTTAACCCTCAAA
71221 TGCTTCGAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
59 49 0.49
60 35 0.35
61 16 0.16
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.37
Consensus pattern (59 bp):
AAAAATCACATTTTTAACCCTAAACTTTCTCAAAATTGCATTTTAACCCTCAAACTTTC
Found at i:80505 original size:15 final size:15
Alignment explanation
Indices: 80481--80510 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
80471 TATTTTTAAC
80481 TTTTACTTTAAATTT
1 TTTTACTTTAAATTT
*
80496 TTTTATTTTAAATTT
1 TTTTACTTTAAATTT
80511 ATCTACATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTACTTTAAATTT
Done.